GEO DataSets

(Submitter supplied) Plant resistance inducers (PRIs) and nitrogen (N) nutrition are both factors known to act on plant defence but their interaction has been little studied and needs further research. The objective of the study was to further characterize this interaction on apple (Malus domestica) plantlets at the molecular level. The produced dataset allows the investigation of the molecular mechanisms underlying: i) the biotic resistance induced by ASM treatments on apple seedlings, ii) their response to different nitrogen (N) status (N limitation or subsequent N resupply), iii) the combination of both N status and ASM treatment.

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29987

18 Samples

Download data: SF, XLSX

(Submitter supplied) To functionally characterise flesh pigmentation pattern, we performed methylation analysis between RF and WF mesocarps. The transition step between fully red fruits and heterogeneously pigmented fruit were targeted during fruit development (84 Days After Full Bloom - DAFB).

Organism:

Malus domestica

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL29947

6 Samples

Download data: BED

(Submitter supplied) To functionally characterise flesh pigmentation pattern, we performed transcriptomic comparisons between RF and WF mesocarps. The transition step between fully red fruits and heterogeneously pigmented fruit were targeted during fruit development (84 Days After Full Bloom - DAFB).

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL34567

6 Samples

Download data: SF

(Submitter supplied) Investigation of whole genome gene expression level changes in leaves of apple seedlings (Golden delicious) 3 days after treatment by Bion 50WG (ASM) versus water.

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29987

6 Samples

Download data: SF, XLSX

(Submitter supplied) Investigation of whole genome gene expression level changes in leaves of Evereste and MM106 genotypes 6 and 24 hours after infiltration (hpi) by Erwinia amylovora (Ea) versus mock (water + 0,01 % Silwet). This analysis include transcritome comaprison between the two apple genotypes just before inoculation (T0).

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29987

30 Samples

Download data: SF, XLSX

(Submitter supplied) Bud dormancy – the repeated phase of rest that punctuates periods of growth in the life cycles of many perennial species. In temperate fruit trees, fulfillment of chilling requirement and subsequent heat requirement enable dormant buds to have uniform blooming in field. However, effects of environmental factors such as chilling underlying dormancy release and bud break has not been fully understood. more...

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29947

10 Samples

Download data: TXT

(Submitter supplied) Bud dormancy – the repeated phase of rest that punctuates periods of growth in the life cycles of many perennial species. In temperate fruit trees, fulfillment of chilling requirement and subsequent heat requirement enable dormant buds to have uniform blooming in field. However, effects of environmental factors such as chilling underlying dormancy release and bud break has not been fully understood. more...

Organism:

Malus domestica

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL18137

24 Samples

Download data: WIG

(Submitter supplied) Induction of whole genome gene expression level changes in leaves of grafted apple genotypes exhibiting contrasted QTL architecture (from one to a combination of three QTL) after the inoculation of the pathogenic fungus Venturia inaequalis

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29987

16 Samples

Download data: SF, XLSX

(Submitter supplied) Investigation of whole genome gene expression level changes in leaves of apple seedlings (Golden delicious) 3 days after treatment by tomato cutin monomer extract (CME) versus formulation blank (FB). CME is a formulated extract enriched of hydroxy fatty acids from tomato cuticle

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29987

6 Samples

Download data: SF, XLSX

(Submitter supplied) To preserve quality feature and ensuring availability of fresh fruit on the market, apples need to be stored. The low temperature applied during storage, beside avoiding important fruit loss, can also promote the development of serious chilling injury type of disorder, such as superficial scald. One of the strategies largely employed to prevent the development of this phenomenon is the control of the storage atmosphere, by lowering down the concentration of oxygen. more...

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL31298

36 Samples

Download data: XLSX

(Submitter supplied) EGCG, as an active oxygen scavenger, has a significant effect on inhibiting the greasiness of apples. However, the impact of greasiness on fruit storage and how EGCG eliminates this effect, as well as its influence on apple quality formation, have not been clarified. In this study, we found that exogenous application of EGCG effectively improved a series of nutritional growth indicators, including seedling growth status and photosynthetic activity. more...

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29987

6 Samples

Download data: TXT

(Submitter supplied) Plant-based diets could be a key source of microRNAs in animals. Plant microRNAs are cross-kingdom gene expression regulators that could modulate mammalian gene expression, influencing their physiology. Therefore, it is important to identify the microRNA expression profile of plant foods in order to identify potential target genes and biological functions in the mammalian host. Next-generation sequencing was applied to identify microRNAs in RNA samples derived from nuts (walnut and almond), vegetables (spinach) and fruits (orange, apple, olive, pear, and tomato). more...

Organism:

Citrus sinensis; Prunus dulcis; Juglans regia; Solanum lycopersicum; Olea europaea; Pyrus communis; Spinacia oleracea; Malus domestica

Type:

Non-coding RNA profiling by high throughput sequencing

8 related Platforms

8 Samples

Download data: XLSX

(Submitter supplied) The low temperature normally applied to prevent fruit decay during the storage of apples, can also triggers the onset of a chilling injury disorder known as superficial scald. In this work, the etiology of this disorder and the mechanism of action of two preventing strategies, such as the application of 1-MCP and storage at low oxygen concentration in ‘Granny Smith’ and ‘Ladina’ apple cultivars was investigated. more...

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL31298

18 Samples

Download data: XLSX

(Submitter supplied) MicroRNA172 (miR172) plays a role in regulating a diverse range of plant developmental processes. However, its role in regulating anthocyanin biosynthesis is unclear. In this study, we show that transgenic apple plants over-expressing miR172 show a reduction in red colouration and anthocyanin accumulation in multiple tissue types. This reduction was consistent with decreased expression of APETALA2 homolog MdAP2_1a (a miR172 target gene), MdMYB10, and targets of MdMYB10, as demonstrated by both RNA-seq and RT-PCR analyses. more...

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29987

6 Samples

Download data: TXT

(Submitter supplied) Implementation and evaluation of tests (PCR, ELISA, NGS) for the presence of viruses, viroids and phytoplasma in propagation materials of apple. Research and application of new sanitation techniques using promising antiviral substances, or cryo-knife. Confirmation of health status of sanitated cultivars including use of modern diagnostic methods such as high-throughput sequencing (NGS).

Organism:

Malus domestica

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL18137

16 Samples

Download data: TXT

(Submitter supplied) Plant cyclophilins are widely involved in a variety of abiotic stress regulation processes. Thirty cyclophilin members were identified from apple and their patterns of response to abiotic stress were examined. Apple seedlings with consistent growth were selected, cultivated under drought stress conditions simulated by PEG6000, sampled according to different time periods, and quickly frozen in liquid nitrogen.Total RNAs of apple plantlets were isolated using an RNA extraction kit (Tiangen, Beijing, China).

Organism:

Malus domestica

Type:

Expression profiling by RT-PCR

Platform:

GPL32690

6 Samples

Download data: TXT

(Submitter supplied) Apple seeds were subjected to accelerated aging. After 7, 14, and 21 days of aging, embryos were isolated. Part of the embryos were shortly fumigated with nitric oxide (NO). After 48 h of embryos culture (aged embryos or aged embryos treated with NO), embryonic axes were used to extract the total RNA. RT-qPCR were done to analyze the changes in the expression of genes related to seed aging. Short-term (3 h) treatment of embryos isolated from accelerated aged apple seeds (Malus domestica Borkh.) with NO partially reduced the effects of aging. more...

Organism:

Malus domestica

Type:

Expression profiling by RT-PCR

Platform:

GPL32430

18 Samples

Download data: XLS

(Submitter supplied) To study the transcriptional level of M9T337 roots induced by T. asperellum 6S-2, and the mechanism of defense against MR5.

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29987

12 Samples

Download data: TXT

(Submitter supplied) V. inaequalis causes apple scab disease, the most economically important disease of apples. In this study, we generated a comprehensive RNA-seq transcriptome of V. inaequalis during host colonization of apple, with six in planta time points (12hpi, 24hpi, 2dpi, 3dpi, 5dpi, 7dpi) and one in culture reference (fungus grown on cellophane membranes overlaying potato dextrose agar). Analysis of this transcriptome identified five in planta gene expression clusters or waves corresponding to three specific infection stages: early, mid and mid-late infection of subcuticular biotrophic host-colonization. more...

Organism:

Venturia inaequalis; Malus domestica

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL32047 GPL32048

28 Samples

Download data: CSV

(Submitter supplied) In order to know more about the expression levels of aroma-related genes involved in the metabolic pathways, transcriptome sequencing of Granny Smith and Jonagold apples was conducted utilizing the Illumina platform. Our study provides new insights on the understanding of transcriptional regulatory mechanisms associated with aroma volatiles formation in apples.

Organism:

Malus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29987

6 Samples

Download data: TXT